Basic Information
VIS ID
TVIS30013262
Fusion event
HIV-NR3C2 integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr4
Cytoband
q31.23
Reference genome
GRCh37/hg19
Start
149271174/148350022 (Hg38)
End
149271174/148350022 (Hg38)
Orient
-
Location type
Intronic
Target gene
NR3C2
miRNAs that regulate target gene
hsa-mir-19b-3p ; hsa-mir-135a-5p ; hsa-mir-124-3p ; hsa-mir-335-5p ; hsa-mir-148b-3p ; hsa-mir-944 ; hsa-mir-548i ; hsa-mir-301b-3p
Nearest miRNA
hsa-mir-12113/Upstream/567354; hsa-mir-1305/Downstream/4139305;
Nearest TSS
ENST00000502981/Upstream/148890; ENST00000504874/Downstream/18448;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/617255, chr4-CpG: 294/Downstream/92038
Upstream sequence
AAGAAAGATAAACATAAAATTCAGTAAATATGCAAAACAAGTGTCCTGTTATGCAAGTGGCAGAGTAAACCAAATACAATATAGTTTTCTTTTCTGAAAG
Downstream sequence
TACCTTATTATAAATAAAAACAAATGGTGCTTAGAAAgtgagctagtattgtcccaggtgctttatgctcagtgcctcatttatcctcactaattctaca
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate